Chromatin supplement (combined draft v2; results/184/184_FigS_chromatin_combined_v2; Fig. S8). Groups (RP genes excluded): Alu-near (classes 1 + 5), Alu-mid (2 + 3 + 6), Alu-far (4 + 7), L1/LTR (8 + 9).
(A) Mean histone signal within TSS +/- 2.5 kb by expression tertile (Corces TPM within the cell type) in HPC, T cells and B cells (even-numbered autosomes); each row has its own y scale; open symbol, fewer than 30 genes; bars, gene-level 95% intervals (Data S2, Table 1b). Histone signal scales differ between cell types and are not compared across them.
(B) CpG methylation measured from the TSS (top row, 0-2.5 kb) and outward from the island edge (bottom row, 0-2 kb) in HPC, T cells and B cells, all four groups; even-numbered autosomes; CpGs overlapping RepeatMasker elements excluded; 100-bp bins, gene value = mean of the upstream and downstream sides, mean over genes; bands, gene-level bootstrap 95% intervals (1,000 draws); grey line, 50%. Edge-referenced profiles are not truncated at the nearest retroelement. Window means are in Data S2 (results/184/184_window_summary.csv). The methylation boundary curves for T and B cells (panel B of the previous version) are in Data S2 (Table 3).
